It's not just Star Wars. The smaller Elite, Star Citizen and Starfield ships are very much smaller than d100 tons.
Star Trek shuttles are also warp capable small craft.
Hey, Jump torpedoes were mentioned in the CT 1977 black books (NOT just Leviathan as some people may think). So if you want to have them, have them. Since they are likely limited in number and magnitude of jumps, they really don't affect the overall Traveller assumptions any more than a fleet of scouts do. Just a bit more convenient at times.
(Here's the mention, under Expendables, Book 2 p18):
"Missiles: Missiles for missile launch racks are expended when they are fired;
replacements must be obtained for reloading purposes when the situation warrants.
Basically, a missile is of the homing type, costing about CR 5000 each. Such missiles
are committed to a specific target when fired, and after launch, home towards that
target until either the missile or the target is destroyed. Other types of missiles are
possible (for example, jump capable message torpedoes, or bombs for attacks
against planetary surfaces), but such require either specific alterations to ordinary
torpedoes, or location of an arms supplier who deals in such items. Specific
attributes of such non-standard missiles are the realm of the referee."
Mind you, Book 2 forgot to say how many G's a standard missile has. You had to have Mayday to know that.
Fighters that have to carry their own jump fuel might be at a disadvantage. They'll also be pricey, unless you change that too.